PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

GSBRNA2T00128451001

Common Name

GSBRNA2T00128451001, LOC106356268

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

LBD

Protein Properties

Length: 173aa MW: 18669.1 Da PI: 7.773

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00128451001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	142.2	1.6e-44	13	112	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +CaaCk+lrr+Ca+dCv++pyfpa++p+kfanvh++FGasnv k+l++lp ++r da+ss+vyeA+ar+rdPvyG+vg i++lqqq++ l GSBRNA2T00128451001 13 PCAACKLLRRRCAQDCVFSPYFPADEPQKFANVHRVFGASNVNKMLQELPIHQRGDAVSSMVYEANARVRDPVYGCVGAISSLQQQIDVL 102 7*************************************************************************************** PP DUF260 91 kaelallkee 100 + +lal+++e GSBRNA2T00128451001 103 QGQLALAQAE 112 ***99976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.096	12	113	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.1E-44	13	110	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 173 aa Download sequence Send to blast
MKESSRKQGA ASPCAACKLL RRRCAQDCVF SPYFPADEPQ KFANVHRVFG ASNVNKMLQE 60 LPIHQRGDAV SSMVYEANAR VRDPVYGCVG AISSLQQQID VLQGQLALAQ AEVVHLRVRH 120 STNFPGNGLC PDSPSSSGSP SSKQVSPQDN KGIFSHMDMV DEASLGESMW SC*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	6e-50	9	114	7	112	LOB family transfactor Ramosa2.1
5ly0_B	6e-50	9	114	7	112	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in young shoots, roots, stems, leaves and flowers. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00128451001

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB473839	1e-169	AB473839.1 Arabidopsis thaliana ASL6 mRNA for ASYMMETRIC LEAVES2-like 6 protein, complete cds.
GenBank	BT015067	1e-169	BT015067.1 Arabidopsis thaliana At1g31320 gene, complete cds.
GenBank	BT015665	1e-169	BT015665.1 Arabidopsis thaliana At1g31320 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009102666.1	1e-126	PREDICTED: LOB domain-containing protein 4
Refseq	XP_013651510.1	1e-126	LOB domain-containing protein 4
Swissprot	Q9SHE9	1e-105	LBD4_ARATH; LOB domain-containing protein 4
TrEMBL	A0A291LQV0	1e-124	A0A291LQV0_BRARR; Transcription factor LBD4
TrEMBL	A0A397YJZ4	1e-124	A0A397YJZ4_BRACM; Uncharacterized protein
TrEMBL	M4DEI6	1e-124	M4DEI6_BRARP; Uncharacterized protein
STRING	Bra014907.1-P	1e-125	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM131	28	340

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G31320.1	1e-102	LOB domain-containing protein 4

Link Out ? help Back to Top
Entrez Gene	106356268

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293]